Job ID = 7117226 SRX = SRX8639497 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:36:55 prefetch.2.10.7: 1) Downloading 'SRR12117061'... 2020-07-22T06:36:55 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:43:35 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:43:35 prefetch.2.10.7: 1) 'SRR12117061' was downloaded successfully 2020-07-22T06:43:35 prefetch.2.10.7: 'SRR12117061' has 0 unresolved dependencies Read 29348650 spots for SRR12117061/SRR12117061.sra Written 29348650 spots for SRR12117061/SRR12117061.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:14:52 29348650 reads; of these: 29348650 (100.00%) were paired; of these: 4042428 (13.77%) aligned concordantly 0 times 21969805 (74.86%) aligned concordantly exactly 1 time 3336417 (11.37%) aligned concordantly >1 times ---- 4042428 pairs aligned concordantly 0 times; of these: 280555 (6.94%) aligned discordantly 1 time ---- 3761873 pairs aligned 0 times concordantly or discordantly; of these: 7523746 mates make up the pairs; of these: 7071884 (93.99%) aligned 0 times 293433 (3.90%) aligned exactly 1 time 158429 (2.11%) aligned >1 times 87.95% overall alignment rate Time searching: 00:14:52 Overall time: 00:14:52 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 24 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 779981 / 25455847 = 0.0306 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 16:10:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 22 Jul 2020 16:10:41: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:10:41: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:10:45: 1000000 INFO @ Wed, 22 Jul 2020 16:10:49: 2000000 INFO @ Wed, 22 Jul 2020 16:10:54: 3000000 INFO @ Wed, 22 Jul 2020 16:10:58: 4000000 INFO @ Wed, 22 Jul 2020 16:11:02: 5000000 INFO @ Wed, 22 Jul 2020 16:11:06: 6000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 16:11:10: 7000000 INFO @ Wed, 22 Jul 2020 16:11:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 22 Jul 2020 16:11:11: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:11:11: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:11:15: 8000000 INFO @ Wed, 22 Jul 2020 16:11:15: 1000000 INFO @ Wed, 22 Jul 2020 16:11:19: 9000000 INFO @ Wed, 22 Jul 2020 16:11:19: 2000000 INFO @ Wed, 22 Jul 2020 16:11:23: 10000000 INFO @ Wed, 22 Jul 2020 16:11:24: 3000000 INFO @ Wed, 22 Jul 2020 16:11:27: 11000000 INFO @ Wed, 22 Jul 2020 16:11:28: 4000000 INFO @ Wed, 22 Jul 2020 16:11:32: 12000000 INFO @ Wed, 22 Jul 2020 16:11:32: 5000000 INFO @ Wed, 22 Jul 2020 16:11:36: 13000000 INFO @ Wed, 22 Jul 2020 16:11:36: 6000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 16:11:40: 14000000 INFO @ Wed, 22 Jul 2020 16:11:41: 7000000 INFO @ Wed, 22 Jul 2020 16:11:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 22 Jul 2020 16:11:41: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:11:41: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:11:44: 15000000 INFO @ Wed, 22 Jul 2020 16:11:45: 8000000 INFO @ Wed, 22 Jul 2020 16:11:46: 1000000 INFO @ Wed, 22 Jul 2020 16:11:48: 16000000 INFO @ Wed, 22 Jul 2020 16:11:49: 9000000 INFO @ Wed, 22 Jul 2020 16:11:51: 2000000 INFO @ Wed, 22 Jul 2020 16:11:53: 17000000 INFO @ Wed, 22 Jul 2020 16:11:53: 10000000 INFO @ Wed, 22 Jul 2020 16:11:56: 3000000 INFO @ Wed, 22 Jul 2020 16:11:57: 18000000 INFO @ Wed, 22 Jul 2020 16:11:58: 11000000 INFO @ Wed, 22 Jul 2020 16:12:01: 4000000 INFO @ Wed, 22 Jul 2020 16:12:01: 19000000 INFO @ Wed, 22 Jul 2020 16:12:02: 12000000 INFO @ Wed, 22 Jul 2020 16:12:06: 20000000 INFO @ Wed, 22 Jul 2020 16:12:06: 5000000 INFO @ Wed, 22 Jul 2020 16:12:06: 13000000 INFO @ Wed, 22 Jul 2020 16:12:10: 21000000 INFO @ Wed, 22 Jul 2020 16:12:10: 14000000 INFO @ Wed, 22 Jul 2020 16:12:11: 6000000 INFO @ Wed, 22 Jul 2020 16:12:14: 22000000 INFO @ Wed, 22 Jul 2020 16:12:15: 15000000 INFO @ Wed, 22 Jul 2020 16:12:16: 7000000 INFO @ Wed, 22 Jul 2020 16:12:18: 23000000 INFO @ Wed, 22 Jul 2020 16:12:19: 16000000 INFO @ Wed, 22 Jul 2020 16:12:21: 8000000 INFO @ Wed, 22 Jul 2020 16:12:22: 24000000 INFO @ Wed, 22 Jul 2020 16:12:23: 17000000 INFO @ Wed, 22 Jul 2020 16:12:26: 9000000 INFO @ Wed, 22 Jul 2020 16:12:27: 25000000 INFO @ Wed, 22 Jul 2020 16:12:27: 18000000 INFO @ Wed, 22 Jul 2020 16:12:31: 26000000 INFO @ Wed, 22 Jul 2020 16:12:31: 10000000 INFO @ Wed, 22 Jul 2020 16:12:32: 19000000 INFO @ Wed, 22 Jul 2020 16:12:35: 27000000 INFO @ Wed, 22 Jul 2020 16:12:36: 20000000 INFO @ Wed, 22 Jul 2020 16:12:36: 11000000 INFO @ Wed, 22 Jul 2020 16:12:39: 28000000 INFO @ Wed, 22 Jul 2020 16:12:40: 21000000 INFO @ Wed, 22 Jul 2020 16:12:41: 12000000 INFO @ Wed, 22 Jul 2020 16:12:44: 29000000 INFO @ Wed, 22 Jul 2020 16:12:44: 22000000 INFO @ Wed, 22 Jul 2020 16:12:46: 13000000 INFO @ Wed, 22 Jul 2020 16:12:48: 30000000 INFO @ Wed, 22 Jul 2020 16:12:48: 23000000 INFO @ Wed, 22 Jul 2020 16:12:51: 14000000 INFO @ Wed, 22 Jul 2020 16:12:52: 31000000 INFO @ Wed, 22 Jul 2020 16:12:53: 24000000 INFO @ Wed, 22 Jul 2020 16:12:56: 15000000 INFO @ Wed, 22 Jul 2020 16:12:56: 32000000 INFO @ Wed, 22 Jul 2020 16:12:57: 25000000 INFO @ Wed, 22 Jul 2020 16:13:01: 33000000 INFO @ Wed, 22 Jul 2020 16:13:01: 16000000 INFO @ Wed, 22 Jul 2020 16:13:01: 26000000 INFO @ Wed, 22 Jul 2020 16:13:05: 34000000 INFO @ Wed, 22 Jul 2020 16:13:05: 27000000 INFO @ Wed, 22 Jul 2020 16:13:06: 17000000 INFO @ Wed, 22 Jul 2020 16:13:09: 35000000 INFO @ Wed, 22 Jul 2020 16:13:09: 28000000 INFO @ Wed, 22 Jul 2020 16:13:11: 18000000 INFO @ Wed, 22 Jul 2020 16:13:14: 36000000 INFO @ Wed, 22 Jul 2020 16:13:14: 29000000 INFO @ Wed, 22 Jul 2020 16:13:15: 19000000 INFO @ Wed, 22 Jul 2020 16:13:18: 37000000 INFO @ Wed, 22 Jul 2020 16:13:18: 30000000 INFO @ Wed, 22 Jul 2020 16:13:20: 20000000 INFO @ Wed, 22 Jul 2020 16:13:22: 38000000 INFO @ Wed, 22 Jul 2020 16:13:22: 31000000 INFO @ Wed, 22 Jul 2020 16:13:25: 21000000 INFO @ Wed, 22 Jul 2020 16:13:26: 39000000 INFO @ Wed, 22 Jul 2020 16:13:26: 32000000 INFO @ Wed, 22 Jul 2020 16:13:30: 22000000 INFO @ Wed, 22 Jul 2020 16:13:31: 40000000 INFO @ Wed, 22 Jul 2020 16:13:31: 33000000 INFO @ Wed, 22 Jul 2020 16:13:35: 41000000 INFO @ Wed, 22 Jul 2020 16:13:35: 34000000 INFO @ Wed, 22 Jul 2020 16:13:35: 23000000 INFO @ Wed, 22 Jul 2020 16:13:39: 42000000 INFO @ Wed, 22 Jul 2020 16:13:39: 35000000 INFO @ Wed, 22 Jul 2020 16:13:40: 24000000 INFO @ Wed, 22 Jul 2020 16:13:43: 43000000 INFO @ Wed, 22 Jul 2020 16:13:43: 36000000 INFO @ Wed, 22 Jul 2020 16:13:45: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:13:48: 44000000 INFO @ Wed, 22 Jul 2020 16:13:48: 37000000 INFO @ Wed, 22 Jul 2020 16:13:50: 26000000 INFO @ Wed, 22 Jul 2020 16:13:52: 38000000 INFO @ Wed, 22 Jul 2020 16:13:52: 45000000 INFO @ Wed, 22 Jul 2020 16:13:54: 27000000 INFO @ Wed, 22 Jul 2020 16:13:56: 39000000 INFO @ Wed, 22 Jul 2020 16:13:56: 46000000 INFO @ Wed, 22 Jul 2020 16:13:59: 28000000 INFO @ Wed, 22 Jul 2020 16:14:01: 40000000 INFO @ Wed, 22 Jul 2020 16:14:01: 47000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:14:04: 29000000 INFO @ Wed, 22 Jul 2020 16:14:05: 41000000 INFO @ Wed, 22 Jul 2020 16:14:05: 48000000 INFO @ Wed, 22 Jul 2020 16:14:09: 42000000 INFO @ Wed, 22 Jul 2020 16:14:09: 49000000 INFO @ Wed, 22 Jul 2020 16:14:09: 30000000 INFO @ Wed, 22 Jul 2020 16:14:13: 43000000 INFO @ Wed, 22 Jul 2020 16:14:14: 50000000 INFO @ Wed, 22 Jul 2020 16:14:14: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:14:14: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:14:14: #1 total tags in treatment: 24527175 INFO @ Wed, 22 Jul 2020 16:14:14: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:14:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:14:14: 31000000 INFO @ Wed, 22 Jul 2020 16:14:15: #1 tags after filtering in treatment: 14456041 INFO @ Wed, 22 Jul 2020 16:14:15: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Jul 2020 16:14:15: #1 finished! INFO @ Wed, 22 Jul 2020 16:14:15: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:14:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:14:15: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:14:15: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Jul 2020 16:14:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:14:18: 44000000 INFO @ Wed, 22 Jul 2020 16:14:19: 32000000 INFO @ Wed, 22 Jul 2020 16:14:22: 45000000 INFO @ Wed, 22 Jul 2020 16:14:24: 33000000 INFO @ Wed, 22 Jul 2020 16:14:26: 46000000 INFO @ Wed, 22 Jul 2020 16:14:29: 34000000 INFO @ Wed, 22 Jul 2020 16:14:30: 47000000 INFO @ Wed, 22 Jul 2020 16:14:34: 35000000 INFO @ Wed, 22 Jul 2020 16:14:35: 48000000 INFO @ Wed, 22 Jul 2020 16:14:39: 36000000 INFO @ Wed, 22 Jul 2020 16:14:39: 49000000 INFO @ Wed, 22 Jul 2020 16:14:43: 50000000 INFO @ Wed, 22 Jul 2020 16:14:44: 37000000 INFO @ Wed, 22 Jul 2020 16:14:44: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:14:44: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:14:44: #1 total tags in treatment: 24527175 INFO @ Wed, 22 Jul 2020 16:14:44: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:14:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:14:44: #1 tags after filtering in treatment: 14456041 INFO @ Wed, 22 Jul 2020 16:14:44: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Jul 2020 16:14:44: #1 finished! INFO @ Wed, 22 Jul 2020 16:14:44: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:14:44: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:14:45: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:14:45: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Jul 2020 16:14:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:14:49: 38000000 INFO @ Wed, 22 Jul 2020 16:14:53: 39000000 INFO @ Wed, 22 Jul 2020 16:14:58: 40000000 INFO @ Wed, 22 Jul 2020 16:15:03: 41000000 INFO @ Wed, 22 Jul 2020 16:15:08: 42000000 INFO @ Wed, 22 Jul 2020 16:15:13: 43000000 INFO @ Wed, 22 Jul 2020 16:15:18: 44000000 INFO @ Wed, 22 Jul 2020 16:15:23: 45000000 INFO @ Wed, 22 Jul 2020 16:15:27: 46000000 INFO @ Wed, 22 Jul 2020 16:15:32: 47000000 INFO @ Wed, 22 Jul 2020 16:15:37: 48000000 INFO @ Wed, 22 Jul 2020 16:15:42: 49000000 INFO @ Wed, 22 Jul 2020 16:15:47: 50000000 INFO @ Wed, 22 Jul 2020 16:15:47: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:15:47: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:15:47: #1 total tags in treatment: 24527175 INFO @ Wed, 22 Jul 2020 16:15:47: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:15:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:15:48: #1 tags after filtering in treatment: 14456041 INFO @ Wed, 22 Jul 2020 16:15:48: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Jul 2020 16:15:48: #1 finished! INFO @ Wed, 22 Jul 2020 16:15:48: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:15:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:15:49: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:15:49: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Jul 2020 16:15:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639497/SRX8639497.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling